Hi @lismore. Thanks for being part of GoDaddy Community! A .htaccess file will usually affect the directory it's in and any directories under it. To address what you're seeing, you should be able to script the redirect to only work on a specific domain. I'm not proficient in doing this, but I know it can be done. You can also try adding a .htaccess file for any directories you do not want the file in the parent directory to affect. Essentially, giving a child directory it's own .htaccess file should tell the server to not apply the settings from the parent directory. Hope that helps.
JesseW - GoDaddy | Community Manager | 24/7 support available at x.co/247support | Remember to choose a solution and give kudos.